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[186966_at]

Description Y39A3CR.6 /REP_DB=WormBase Gene ID /WP=CE21653 /TR=Q9N410 /GB=AAF60523.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Cluster 6grp_total > 15      4grp_total > 54      6grp_total_sub > Decrease      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 399
1 2 3 4 range
A 377.5
(3)
P 		318.7
(1.7)
A 		199.6
(-0.9)
M 		104.4
(-3)
A 		273
B 448.9
(3)
P 		273.7
(-0.6)
M 		239.4
(-1.4)
P 		160.4
(-3)
A 		289
C 503.2
(3)
M 		274
(-1.2)
A 		249.6
(-1.7)
P 		176.7
(-3)
A 		327
avr 443.2
(3) 		288.8
(-0.1) 		229.5
(-1.3) 		147.2
(-3) 		296

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 245
1 2 3 4 5 6 range
A 256.4
(0.8)
A 		341.4
(3)
M 		147.9
(-1.9)
A 		148.8
(-1.9)
A 		132.4
(-2.3)
A 		105.4
(-3)
A 		236
B 197.8
(0.5)
A 		244.4
(3)
A 		135.6
(-2.8)
A 		187.8
(0)
A 		158.4
(-1.6)
A 		131.1
(-3)
A 		113
C 281.9
(3)
P 		234.2
(1.5)
A 		208.3
(0.6)
A 		96.2
(-3)
A 		201.6
(0.4)
A 		96.9
(-3)
A 		186
avr 245.4
(2) 		273.3
(3) 		163.9
(-1) 		144.3
(-1.8) 		164.1
(-1) 		111.1
(-3) 		162
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 151
1 2 3 4 range
A 137.4
(3)
P 		69.2
(-0.4)
A 		52.2
(-1.2)
M 		15.3
(-3)
A 		122
B 143.2
(3)
P 		67.6
(-1.2)
M 		55.5
(-1.8)
P 		34.2
(-3)
A 		109
C 166.6
(3)
M 		78.8
(-0.9)
A 		87
(-0.5)
P 		29.8
(-3)
A 		137
avr 149.1
(3) 		71.9
(-0.8) 		64.9
(-1.1) 		26.4
(-3) 		123

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 102
1 2 3 4 5 6 range
A 47.3
(-1.6)
A 		121.4
(3)
M 		32.2
(-2.6)
A 		37.7
(-2.2)
A 		40
(-2.1)
A 		25.7
(-3)
A 		96
B 68.8
(1.4)
A 		81.4
(3)
A 		32.9
(-3)
A 		49.7
(-0.9)
A 		64.4
(0.9)
A 		48.9
(-1)
A 		49
C 104.5
(3)
P 		71.4
(0.7)
A 		53
(-0.6)
A 		19.3
(-3)
A 		65.2
(0.2)
A 		32.4
(-2.1)
A 		85
avr 73.5
(1.1) 		91.4
(3) 		39.4
(-2.6) 		35.6
(-3) 		56.5
(-0.8) 		35.7
(-3) 		56
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 186966_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.8280
Sequence Type Exemplar sequence
Representative Public ID Y39A3CR.6 NCBI
Target Description Y39A3CR.6 /REP_DB=WormBase Gene ID /WP=CE21653 /TR=Q9N410 /GB=AAF60523.1 /SUBMIT=ST.LOUIS /CHR=3 /FEA=Sanger Annotation
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_065064(10)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_065064 NCBI Caenorhabditis elegans Y39A3CR.6 (Y39A3CR.6) mRNA, complete cds. 10/11 None
SNAP00000029612 ENSEMBL cdna:SNAP chromosome:CEL140:III:1855382:1860223:1 10/11 None
GENEFINDER00000029620 ENSEMBL cdna:GeneFinder chromosome:CEL140:III:1855382:1860223:1 10/11 None
Y39A3CR.6 ENSEMBL cdna:known chromosome:CEL140:III:1855382:1858873:1 gene:Y39A3CR.6 10/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrIII:1855381-1858710(+) 100.0 100.0
Public Domain and Genome References
Gene Title
Ensembl Y39A3CR.6
Entrez Gene 189728 Entrez gene
SwissProt Q9N410 EMBL-EBI
WormBase CE29998 Wormbase
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAF60523 Hypothetical protein Y39A3CR.6 [Caenorhabditis elegans] ref|NP_497465.2| Y39A3CR.6 [Caenorhabditis elegans] 1.0E-172
blast AAF60523 Hypothetical protein Y39A3CR.6 [Caenorhabditis elegans] ref|NP_497465.2| Y39A3CR.6 [Caenorhabditis elegans] 1.0E-149
blast CAE69107 Hypothetical protein CBG15133 [Caenorhabditis briggsae] 1.0E-71
blast CAE69107 Hypothetical protein CBG15133 [Caenorhabditis briggsae] 2.0E-71
blast AAF60525 Human ddp related protein 1 [Caenorhabditis elegans] ref|NP_497467.1| human DDP related family member (ddp-1) [Caenorhabditis elegans] 2.0E-43
Protein Domains
Database ID Description E-Value
Pfam IPR004217 EMBL-EBI Zn-finger, Tim10/DDP type 2.1E-30
Sequence
Target Sequence 
>C. ELEGANS:186966_AT
cccgctcgtccaggatattttcagcctgaccaactgttttatggtttttctgaacaattt
tattgtcgtggatattaagggagaccatcaggcagtttttgatattgaaaaaaaacgtat
gattggaaaagatatccgatgttttctggactacgattcaacgtccaaactgtcatttct
cacttccaaagaaatgctcaatgagctccaactcaaaagcttcatggcgaagtcaatgac
gtgcagaataaaggaatcggcggagaaacccacggaaacagttttagtctgtgtgcctga
tgagcttccagctctcccggttactgtacccaaggctccgcccattttagcttcgcccct
tcagaagacaccgcccccgccgtcgagtttggaggtgaaaagcccgattttggcggcact
tttgaggcgaaaagaggataattgtgtgaaagtggtaaagctccccaagctccttcctct
cgccgggctcctccacctcgtctacagtacccaatgtg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
CCCGCTCGTCCAGGATATTTTCAGC 129 261 369 Antisense
ATTTTCAGCCTGACCAACTGTTTTA 68 15 385 Antisense
AAGGGAGACCATCAGGCAGTTTTTG 490 157 445 Antisense
CGATGTTTTCTGGACTACGATTCAA 24 249 505 Antisense
TCAACGTCCAAACTGTCATTTCTCA 271 631 526 Antisense
TCGGCGGAGAAACCCACGGAAACAG 147 603 625 Antisense
TAGTCTGTGTGCCTGATGAGCTTCC 77 653 653 Antisense
GTGAAAAGCCCGATTTTGGCGGCAC 330 481 763 Antisense
TTTTGGCGGCACTTTTGAGGCGAAA 12 675 776 Antisense
GAAAGTGGTAAAGCTCCCCAAGCTC 175 359 816 Antisense
CACCTCGTCTACAGTACCCAATGTG 18 201 862 Antisense
Sequence Source Affymetrix Proprietary Database